[Bioc-devel] Can not push to bioconductor! please help me!

Zhu MF wind2zhu at 163.com
Wed Apr 18 08:04:40 CEST 2018

Dear sir,
Thank you for your letter. 

Firstly, Actually, I don't know why does the content in GitHub and Bioconductor are not the same when the package was firstly releaed in bioconductor?  In the GitHub we have removed the error file since the first release.

Then, the tips of the checked error was caused by the  expired function of rcdk not BioMedR.

The error is in the unitest that actually worked well in other cases, so in our local machine, this error have not been triggerd in the past one year, so we don't know what happened.

So, could you help us simple the review process and include in the  Bioc 3.7 release?

Thank you very much!

At 2018-04-17 01:47:51, "Shepherd, Lori" <Lori.Shepherd at RoswellPark.org> wrote:

Dear BioMedR maintainer, 

Unfortunately BioMedR was removed from Bioconductor as of Release 3.6 (last
Oct).  We reached out several times before the 3.6 release as your package had
been failing since early July 2017. Part of the Bioconductor guidelines require
that packages are actively maintained and fixed in a timely manner. Packages are
built daily indicating if there are ERROR's or WARNING's and should be 
occasionally checked:


Besides emailing you privately several times,  it was also posted before the
release on the support site and devel mailing list (bioc-devel at r-project.org)
links given below - giving time to respond before officially being
deprecated. And you would have recieved email notifications from
BBS-noreply at bioconductor.org indicating build failures.



As you remained unresponsive and the package remained broken it began the
deprecation and end-of-life process. 

If you would like to revive the package, it would need to go through
the package review process again and at this point is too late to be included in
the Bioc 3.7 release.  You can have it reviewed and accepted to be re-included in
Bioc 3.8 later this year. 

Lori Shepherd

Bioconductor Core Team

Roswell Park Cancer Institute

Department of Biostatistics & Bioinformatics

Elm & Carlton Streets

Buffalo, New York 14263

From: Bioc-devel <bioc-devel-bounces at r-project.org> on behalf of Zhu MF <wind2zhu at 163.com>
Sent: Monday, April 16, 2018 12:32:10 PM
To:bioc-devel at r-project.org
Subject: [Bioc-devel] Can not push to bioconductor! please help me!
dear sir:

contents in GitHub and that in bioconductor are not the same. I want to update the package to follow the contents in github, but falied:

git remote -v
origin  git at github.com:wind22zhu/BioMedR.git (fetch)
origin  git at github.com:wind22zhu/BioMedR.git (push)
upstream  git at git.bioconductor.org:packages/BioMedR.git (fetch)
upstream  git at git.bioconductor.org:packages/BioMedR.git (push)

$ git push upstream master
Enter passphrase for key '/c/Users/ifyoung/.ssh/id_rsa':
FATAL: W any packages/BioMedR wind22zhu DENIED by fallthru
(or you mis-spelled the reponame)
fatal: Could not read from remote repository.
Please make sure you have the correct access rights
and the repository exists.

$ ssh -T git at git.bioconductor.org

 R      packages/BioMedR

No WRITE(W) permissions?
Can you help me ? I have been stucked here  for several days!
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